LorMe package for R：Lightening One-code Resolving Microbial Ecology Program

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

Assembly and binning of metagenomes

Codes used in papaer "Sustained N2O reduction at acidic pH"

Soil microbial dark matter mining based on genome-resolved metagenomics

A list of R environment based tools for marker gene microbiome data exploration, statistical analysis and visualization

an R/Shiny application for interactive creation of Circos plot

Metatranscriptomics Tutorial

Metagenomic sequence data analysis pipeline

making input tree for mcmctree

MCMCtree tutorials

Tutorial for using MCMCTree as implemented by Brown Lab at SIUC. For divergence time estimation on UCE datasets, for dendrobatid frogs.

Methods for the analyses described in Moody et al. 2024 (https://www.nature.com/articles/s41559-024-02461-1)

https://github.com/jakevdp/PythonDataScienceHandbook.git

A Shiny-based framework to analyze and visualize interactively genomic data

R script for analyzing and plotting metagenome data from Chinese forest soils

Supporting code for manuscript: "Ecological/environmental drivers of global soil virome diversity"

Genomic language model predicts protein co-regulation and function

hecatomb is a virome analysis pipeline for analysis of Illumina sequence data